Sequence
atgc intronic sequence ATGC exonic sequence...gcatcatatgtcaggtttagggtcttaaatttgtatgtaaagttcctgcaactaatccagatttgcccactttataactacctgtttctggtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G35280.1 (Glycine max), 3'ss of exon 11
--gcatcatatgtcaggtttagggtcttaaatttgtatgtaaagttcctgcaactaatccagatttgccc-actttataactacctgtttctggtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
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tacaattattggt--atctcctgatttctgttcaacgcccatggttttggctttgttgacagtttaattttactttttcccgtcctgttt-tgatataattagGCAGCCAGACCTGGGTTGGATGAGAAGATTGCAACAAATACTTGGTCGGAAGCACCAGCGCAACCTGCAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 11
gcatcatatgtcaggt-ttagggtcttaaatttgtatgtaaagttcctgca--actaatccagatttgcccactttataactacctgtttctggtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
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--attattggttttttctcctgattttttttcaatacccatggttttggctttgttgacggagtttaattttagttttcccatcctgttt-tgatataattagGCAGCCAGACCTGGGTTGGATGAGAAGATTGCAACAAATACTTGGTCGGAAGCACCAGCGCAACCTGCAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G12670.1 (Glycine max), 3'ss of exon 11
gcatcatatgtcaggtttagggtcttaaatttgtatgtaaagttcc----tgcaactaatccagatttgcc---cactttataactacctgtttctggtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
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--ctcctatcattggtt----gctccggatttgtatgcaatgctcagtagtatggtttcttgatgatcgccattcacctttctccaccctgtttttg-cataaatagGCAACCAGACCTAGGTTGGATGAGAAGATTACAACAAATACTTGGACGGAAGCACCAGCACAACCTGCAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 11
---------------gcatcatatgtcaggtttagggtcttaaatttgtatgtaaagttcctgcaactaatccagatttgcccactttataactacctgtttctggtgtgaa----cagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
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gtaagttgattcttaatactgtttatcggaaaaagactcctgtgctt---tataaacttc-----actaacttctttttgct---tttacgggtttgaatttgcaatgtgaatcaacagCCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAAACACCAGCGTAACCTTCAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|77580521|gb|DV219155.1|DV219155EST: CAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT CCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAA
genomic: CAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGATgtaagtatag ... gtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAA
EST:
gi|45368236|gb|CK906595.1|CK906595EST: CAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT CCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAA
genomic: CAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGATgtaagtatag ... gtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcaactaatccagatttgcccactttataactacctgtttctggtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
ttataac putative branch site (score: 2)
tttataacta TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatcatatgtcaggtttagggtcttaaatttgtatgtaaagttcctgcaactaatccagatttgcccactttataactacctgtttctggtgtgaacagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - -tgtatgt
- - - - - - - - - - - - - - - - - - - - - -tcctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccactt